From patchwork Tue Jul 27 02:56:32 2021 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Sarah Morgensen X-Patchwork-Id: 31615 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id CA29927BC78; Tue, 27 Jul 2021 03:58:11 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.8 required=5.0 tests=BAYES_00,DKIM_SIGNED, MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H4,RCVD_IN_MSPIKE_WL,SPF_HELO_PASS, T_DKIM_INVALID,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 9286927BC6B for ; Tue, 27 Jul 2021 03:58:11 +0100 (BST) Received: from localhost ([::1]:35110 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1m8DII-00058Q-KR for patchwork@mira.cbaines.net; Mon, 26 Jul 2021 22:58:10 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:51062) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1m8DI9-00057u-TY for guix-patches@gnu.org; Mon, 26 Jul 2021 22:58:01 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:40414) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1m8DI9-00071b-Kp for guix-patches@gnu.org; Mon, 26 Jul 2021 22:58:01 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1m8DI9-0008Ts-LN for guix-patches@gnu.org; Mon, 26 Jul 2021 22:58:01 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#49729] [PATCH core-updates 03/20] gnu: khmer: Remove obsolete phase. Resent-From: Sarah Morgensen Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 27 Jul 2021 02:58:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 49729 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 49729@debbugs.gnu.org Received: via spool by 49729-submit@debbugs.gnu.org id=B49729.162735462332335 (code B ref 49729); Tue, 27 Jul 2021 02:58:01 +0000 Received: (at 49729) by debbugs.gnu.org; 27 Jul 2021 02:57:03 +0000 Received: from localhost ([127.0.0.1]:51915 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1m8DHD-0008PR-7j for submit@debbugs.gnu.org; Mon, 26 Jul 2021 22:57:03 -0400 Received: from out0.migadu.com ([94.23.1.103]:24062) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1m8DH6-0008OD-7B for 49729@debbugs.gnu.org; Mon, 26 Jul 2021 22:56:56 -0400 X-Report-Abuse: Please report any abuse attempt to abuse@migadu.com and include these headers. DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=mgsn.dev; s=key1; t=1627354615; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version: content-transfer-encoding:content-transfer-encoding: in-reply-to:in-reply-to:references:references; bh=BpXlU6KXIE1eoQ5nKzzvGb7ncEgfWDW8eJT11/ECcNc=; b=TPt+bCP2QoWDYAhx3fLliLmCSGdzXiunUQVWhDj1hd1iwrvMPh5ueHD9rvtuSP6pAppSgS QZcBwBtEfLs8Ko85/+sZNpCQRSX/CCkgcSgO6YKJlyUmFm1XiP7H2Wf82fdk1qFap0vrlb MNPttiY4JmvYgV9NaLcttOvtXbQ/MPs= From: Sarah Morgensen Date: Mon, 26 Jul 2021 19:56:32 -0700 Message-Id: <4653284d9fd1c732063872170fb197af734b2f2f.1627351168.git.iskarian@mgsn.dev> In-Reply-To: References: MIME-Version: 1.0 X-Migadu-Flow: FLOW_OUT X-Migadu-Auth-User: iskarian@mgsn.dev X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (khmer)[arguments]<#:phases>: Remove 'make-files-writable phase. --- gnu/packages/bioinformatics.scm | 11 +---------- 1 file changed, 1 insertion(+), 10 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f027da3ce7..76a8160aa6 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4739,16 +4739,7 @@ command, or queried for specific k-mers with @code{jellyfish query}.") `(#:phases (modify-phases %standard-phases (add-after 'unpack 'set-cc - (lambda _ (setenv "CC" "gcc") #t)) - - (add-before 'reset-gzip-timestamps 'make-files-writable - (lambda* (#:key outputs #:allow-other-keys) - ;; Make sure .gz files are writable so that the - ;; 'reset-gzip-timestamps' phase can do its work. - (let ((out (assoc-ref outputs "out"))) - (for-each make-file-writable - (find-files out "\\.gz$")) - #t)))))) + (lambda _ (setenv "CC" "gcc") #t))))) (native-inputs `(("python-cython" ,python-cython) ("python-pytest" ,python-pytest)